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James Urban
Doctoral Student
Department of Chemistry & Molecular Biology-
Deep learning method for the prediction of glycan structures from mass spectrometry
data
James Urban, Daniel Bojar
Nature Methods - 2024 -
Functional implications of glycans and their curation: insights from the workshop held at the 16th Annual International Biocuration Conference in Padua,
Italy
Karina Martinez, Jon Agirre, Yukie Akune, Kiyoko F. Aoki-Kinoshita, Cecilia Arighi, Kristian B. Axelsen, Evan Bolton, Emily Bordeleau, Nathan J. Edwards, Elisa Fadda, Ten Feizi, Catherine Hayes, Callum M. Ives, Hiren J. Joshi, Khakurel Krishna Prasad, Sofia Kossida, Frederique Lisacek, Yan Liu, Thomas Luetteke, Junfeng Ma, Adnan Malik, Maria Martin, Akul Y. Mehta, Sriram Neelamegham, Kalpana Panneerselvam, Rene Ranzinger, Sylvie Ricard-Blum, Gaoussou Sanou, Vijay Shanker, Paul D. Thomas, Michael Tiemeyer, James Urban, Randi Vita, Jeet Vora, Yasunori Yamamoto, Raja Mazumder
DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION - 2024 -
Predicting glycan structure from tandem mass spectrometry via deep
learning
James Urban, Chunsheng Jin, Kristina A Thomsson, Niclas G. Karlsson, Callum M. Ives, Elisa Fadda, Daniel Bojar
NATURE METHODS - 2024 -
Navigating the maze of mass spectra: a machine-learning guide to identifying diagnostic ions in O-glycan
analysis
James Urban, Roman Joeres, Luc Thomes, Kristina A Thomsson, Daniel Bojar
ANALYTICAL AND BIOANALYTICAL CHEMISTRY - 2024 -
GlycoDraw: a python implementation for generating high -quality glycan
figures
Jon Lundstrøm, James Urban, Luc Thomes, Daniel Bojar
GLYCOBIOLOGY - 2023 -
Decoding glycomics with a suite of methods for differential expression
analysis
Jon Lundstrøm, James Urban, Daniel Bojar
Cell Reports Methods - 2023